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Genome-wide analysis of tar spot complex resistance in maize using genotyping-by-sequencing SNPs and whole-genome prediction

Author: Shiliang Cao
Author: Loladze, A.
Author: Yibing Yuan
Author: Yongsheng Wu
Author: Ao Zhang
Author: Jiafa Chen
Author: Huestis, G.M.
Author: Jingsheng Cao
Author: Chaikam, V.
Author: Olsen, M.
Author: Prasanna, B.M.
Author: San Vicente, F.M.
Author: Zhang, X.
Year: 2017
URI: http://hdl.handle.net/10883/19127
Abstract: Tar spot complex (TSC) is one of the most destructive foliar diseases of maize (Zea mays L.) in tropical and subtropical areas of Central and South America, causing significant grain yield losses when weather conditions are conducive. To dissect the genetic architecture of TSC resistance in maize, association mapping, in conjunction with linkage mapping, was conducted on an association-mapping panel and three biparental doubled-haploid (DH) populations using genotyping-by-sequencing (GBS) single-nucleotide polymorphisms (SNPs). Association mapping revealed four quantitative trait loci (QTL) on chromosome 2, 3, 7, and 8. All the QTL, except for the one on chromosome 3, were further validated by linkage mapping in different genetic backgrounds. Additional QTL were identified by linkage mapping alone. A major QTL located on bin 8.03 was consistently detected with the largest phenotypic explained variation: 13% in association-mapping analysis and 13.18 to 43.31% in linkage-mapping analysis. These results indicated that TSC resistance in maize was controlled by a major QTL located on bin 8.03 and several minor QTL with smaller effects on other chromosomes. Genomic prediction results showed moderate-to-high prediction accuracies in different populations using various training population sizes and marker densities. Prediction accuracy of TSC resistance was >0.50 when half of the population was included into the training set and 500 to 1,000 SNPs were used for prediction. Information obtained from this study can be used for developing functional molecular markers for marker-assisted selection (MAS) and for implementing genomic selection (GS) to improve TSC resistance in tropical maize.
Format: PDF
Language: English
Publisher: Crop Science Society of America
Copyright: CIMMYT manages Intellectual Assets as International Public Goods. The user is free to download, print, store and share this work. In case you want to translate or create any other derivative work and share or distribute such translation/derivative work, please contact CIMMYT-Knowledge-Center@cgiar.org indicating the work you want to use and the kind of use you intend; CIMMYT will contact you with the suitable license for that purpose.
Type: Article
Place of Publication: Madison, WI (USA)
Pages: 1-14
Issue: 2
Volume: 10
DOI: 10.3835/plantgenome2016.10.0099
Country of Focus: CENTRAL AMERICA
Country of Focus: SOUTH AMERICA
Agrovoc: MAIZE
Agrovoc: GENETIC STRUCTURES
Agrovoc: FOLIAR DISEASES
Agrovoc: QUANTITATIVE TRAIT LOCI
Related Datasets: https://dl.sciencesocieties.org/publications/tpg/supplements/10/plantgenome2016.10.0099-supplement1.xlsx
Journal: The Plant Genome
Related Software: http://hdl.handle.net/11529/10201


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  • Maize
    Maize breeding, phytopathology, entomology, physiology, quality, and biotech

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